Protein Info for GFF2020 in Xanthobacter sp. DMC5

Annotation: Cytochrome bd-I ubiquinol oxidase subunit 2

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 300 350 385 transmembrane" amino acids 14 to 41 (28 residues), see Phobius details amino acids 54 to 78 (25 residues), see Phobius details amino acids 83 to 105 (23 residues), see Phobius details amino acids 125 to 147 (23 residues), see Phobius details amino acids 174 to 196 (23 residues), see Phobius details amino acids 208 to 230 (23 residues), see Phobius details amino acids 270 to 289 (20 residues), see Phobius details amino acids 297 to 321 (25 residues), see Phobius details amino acids 341 to 365 (25 residues), see Phobius details TIGR00203: cytochrome d ubiquinol oxidase, subunit II" amino acids 6 to 379 (374 residues), 454 bits, see alignment E=2.4e-140 PF02322: Cyt_bd_oxida_II" amino acids 12 to 367 (356 residues), 364.6 bits, see alignment E=2.3e-113

Best Hits

Swiss-Prot: 51% identical to CYOB_HAEIN: Probable cytochrome oxidase subunit 2 (HI_1075) from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

KEGG orthology group: K00426, cytochrome bd-I oxidase subunit II [EC: 1.10.3.-] (inferred from 76% identity to atu:Atu4092)

MetaCyc: 48% identical to cytochrome bd-I subunit 2 (Escherichia coli K-12 substr. MG1655)
RXN0-5266 [EC: 7.1.1.7]; 1.11.1.- [EC: 7.1.1.7]; 1.11.1.- [EC: 7.1.1.7]

Predicted SEED Role

"Cytochrome d ubiquinol oxidase subunit II (EC 1.10.3.-)" in subsystem Bacterial RNA-metabolizing Zn-dependent hydrolases or Conserved gene cluster associated with Met-tRNA formyltransferase or Terminal cytochrome d ubiquinol oxidases or Terminal cytochrome oxidases (EC 1.10.3.-)

MetaCyc Pathways

Isozymes

Compare fitness of predicted isozymes for: 1.10.3.-

Use Curated BLAST to search for 1.10.3.- or 7.1.1.7

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

Find the best match in UniProt

Protein Sequence (385 amino acids)

>GFF2020 Cytochrome bd-I ubiquinol oxidase subunit 2 (Xanthobacter sp. DMC5)
MILHTLIDYDALRVIWWLLLGVLLIGFAIMDGFDLGTGMLLPFVARTDLERRVVINTVGP
VWEGNQVWLILGGGAIFAAWPPLYAVSFSGFYLAMFAILFALILRPVGFKYRSKREGAAW
RTAWDWALFVGGLVPALVMGVAVGNVLQGVPFHLNDELRIFYDGTTLIELLNPYGLLCGL
LSVAMLVMHGANWLVLKTEGEVEARARTIGSAAALVTALLFVLGGAWLYFGVSGYRIVGE
IAKDGPSNPLAKAAELSPHAWFANYGARPWIIAGPLLGIAGALASFAALRARREIGAILA
SALAIFGIISTVGLSMFPFILPSSIDPRSSLIVWDASSSHLTLFIMLVCAVVFVPVILAY
TTWVYRVLWGKVDAKAIADGSGHAY